Publications and presentations

Publications

• Real world impact of 13vPCV in preventing invasive pneumococcal pneumonia in Australian children: A national study
• Convergence of surveillance blind spots with antimicrobial resistance hotspots
• Key lessons from the COVID-19 public health response in Australia
• Contact tracing indicators for COVID-19: Rapid scoping review and conceptual framework
• An international observational study to assess the impact of the Omicron variant emergence on the clinical epidemiology of COVID-19 in hospitalised patients
• Respiratory support in patients with severe COVID-19 in the International Severe Acute Respiratory and Emerging Infection (ISARIC) COVID-19 study: a prospective, multinational, observational study
• ISARIC-COVID-19 dataset: A prospective, standardized, global dataset of patients hospitalized with COVID-19
• Effectiveness evaluation of digital contact tracing for COVID-19 in New South Wales, Australia
• Serological testing of blood donors to characterise the impact of COVID-19 in Melbourne, Australia, 2020
• The value of open-source clinical science in pandemic response: lessons from ISARIC
• Metagenomic characterisation of additional and novel avian viruses from Australian wild ducks
• Genome sequence analysis of first Ross River virus isolate from Papua New Guinea indicates long-term, local evolution
• Phylogenetic and timescale analysis of Barmah Forest virus as inferred from genome sequence analysis
• Genome-scale phylogeny and evolutionary analysis of Ross River virus reveals periodic sweeps of lineage dominance in Western Australia, 1977-2014
• Respiratory support in patients with severe COVID-19 in the International Severe Acute Respiratory and Emerging Infection (ISARIC) COVID-19 study: a prospective, multinational, observational study
• Exploring healthcare workers’ perspectives of video feedback for training in the use of powered air purifying respirators (PAPR) at the onset of the COVID-19 pandemic
• ‘Like building a plane and flying it all in one go’: an interview study of infection prevention and control in Australian general practice during the first 2 years of the SARS-CoV-2 pandemic
• Learnings from the Australian first few X household transmission project for COVID-19
• Transmission of SARS-CoV-2 in standardised first few X cases and household transmission investigations: A systematic review and meta-analysis
• Engage, understand, listen and act: evaluation of Community Panels to privilege First Nations voices in pandemic planning and response in Australia
• HPeV3 diversity, recombination and clinical impact across 7-years: an Australian story
• Virology and immune dynamics reveal high household transmission of ancestral SARS-CoV-2 strain
• Relative effectiveness of COVID-19 vaccination with 3 compared to 2 doses against SARS-CoV-2 B.1.1.529 (Omicron) among an Australian population with low prior rates of SARS-CoV-2 infection [preprint]
• People in intensive care with COVID-19: demographic and clinical features during the first, second, and third pandemic waves in Australia
• Timing and temporal trends of influenza and pertussis vaccinations during pregnancy in three Australian jurisdictions: The Links2HealthierBubs population-based linked cohort study, 2012–2017
• Paradoxes of pandemic infection control: Proximity, pace and care within and beyond SARS-CoV-2
• Using systems thinking to better understand risks and protective factors for urban Indigenous peoples during COVID-19
• Experiences of risk in Australian hotel quarantine: a qualitative study
• Effect of antiplatelet therapy on survival and organ support-free days in critically ill patients with COVID-19: A randomized clinical trial
• Use of an extended KDIGO definition to diagnose acute kidney injury in patients with COVID-19: A multinational study using the ISARIC-WHO clinical characterisation protocol
• Transmission of SARS-CoV-2 in standardised First Few X cases and household transmission investigations: a systematic review and meta-analysis [preprint]
• Priorities in Biobanking Research: A Report on the 2021 ISBER Round Table
• What is needed to sustain improvements in hospital practices post-COVID-19? A qualitative study of interprofessional dissonance in hospital infection prevention and control
• The ongoing value of first few X studies for COVID-19 in the Western Pacific Region
• Rapid assessment of the risk of SARS-CoV-2 importation: case study and lessons learned
• COVID-19 in low-tolerance border quarantine systems: Impact of the Delta variant of SARS-CoV-2
• The Burden of the Beast. Countering conspiracies and misinformation within Indigenous communities in Australia
• Seroprevalence of Severe Acute Respiratory Syndrome Coronavirus 2-specific antibodies in Australia after the first epidemic wave in 2020: A national survey
• Uncertainty and agency in COVID-19 hotel quarantine in Australia
• Ethical health security in the age of antimicrobial resistance
• A point-of-care lateral flow assay for neutralising antibodies against SARS-CoV-2
• Experiences of the SARS-CoV-2 pandemic amongst Australian Healthcare workers: From stressors to protective factors
• Development and implementation of a shared governance model in a mainstream health unit: a case study of embedding Aboriginal voices in organisational decision making
• Glucocorticoid dose in COVID-19: Lessons for clinical trials during a pandemic
• “One minute it’s an airborne virus, then it’s a droplet virus, and then it’s like nobody really knows…”: Experiences of pandemic PPE amongst Australian healthcare workers
• Understanding how Victoria, Australia gained control of its second COVID-19 wave
• Effect of convalescent plasma on organ support–free days in critically ill patients with COVID-19. A randomized clinical trial
• Association between convalescent plasma treatment and mortality in COVID-19: a collaborative systematic review and meta-analysis of randomized clinical trials
• Prospective characterisation of SARS-CoV-2 infections among children presenting to tertiary paediatric hospitals across Australia in 2020: a national cohort study
• Development of the COVID-19 Real-Time Information System for Preparedness and Epidemic Response (CRISPER), Australia
• Doherty Modelling–Final report to National Cabinet 5th November 2021
• Respiratory virus detection during the COVID-19 pandemic in Queensland, Australia
• ATAGI 2021 annual statement on immunisation Last updated: 19 September 2021
• Longitudinal evaluation of laboratory-based serological assays for SARS-CoV-2 antibody detection
• Policy considerations for mandatory COVID-19 vaccination from the Collaboration on Social Science in Immunisation
• Modelling testing and response strategies for COVID-19 outbreaks in remote Australian Aboriginal communities
• Essential Emergency and Critical Care: a consensus among global clinical experts
• Entanglements of affect, space, and evidence in pandemic healthcare: An analysis of Australian healthcare workers’ experiences of COVID-19
• Testing the efficacy and acceptability of video-reflexive methods in personal protective equipment training for medical interns: a mixed methods study
• Neonatal parechovirus infection: Possibility of in-utero transmission
• Development of an influenza pandemic decision support tool linking situational analytics to national response policy
• Optimal allocation of PCR tests to minimise disease transmission through contact tracing and quarantine
• Doherty Modelling Interim Report to National Cabinet 17th September 2021
• Doherty Modelling Report Revised 10th August 2021
• Therapeutic anticoagulation with heparin in critically ill patients with Covid-19
• Therapeutic anticoagulation with heparin in noncritically ill patients with Covid-19
• Whole of population-based cohort study of recovery time from COVID-19 in New South Wales Australia
• Antibiotic resistance in uropathogens across northern Australia 2007–20 and impact on treatment guidelines
• National predictors of influenza vaccine uptake in pregnancy: the FluMum prospective cohort study, Australia, 2012–2015
• Exploring the cause of diarrhoea and poor growth in 8–11-week-old pigs from an Australian pig herd using metagenomic sequencing
• Evaluation of 6 commercial SARS-CoV-2 serology assays detecting different antibodies for clinical testing and serosurveillance
• Doherty Modelling Report for National Cabinet 30 July 2021
• Leading with local solutions to keep Yarrabah safe: a grounded theory study of an Aboriginal community-controlled health organisation’s response to COVID-19
• Australia needs a prioritised national research strategy for clinical trials in a pandemic: lessons learned from COVID-19
• The impact of the COVID‐19 pandemic on routine vaccinations in Victoria
• Reprogrammed CRISPR-Cas13b suppresses SARS-CoV-2 replication and circumvents its mutational escape through mismatch tolerance
• An increased ratio of SARS-CoV-2 positive to negative sense genomic and subgenomic RNAs within routine diagnostic upper respiratory tract swabs may be a marker of virion shedding [preprint]
• Temporal differences in culturable severe acute respiratory coronavirus virus 2 (SARS-CoV-2) from the respiratory and gastrointestinal tracts in a patient with moderate coronavirus disease 2019 (COVID-19)
• Integrated immune dynamics define correlates of COVID-19 severity and antibody responses
• COVID‐19 Real‐time Information System for Preparedness and Epidemic Response (CRISPER)
• Multi-site assessment of rapid, point-of-care antigen testing for the diagnosis of SARS-CoV-2 infection in a low-prevalence setting: A validation and implementation study
• Interleukin-6 receptor antagonists in critically ill patients with Covid-19
• Hospital outcomes after a COVID-19 diagnosis from January to May 2020 in New South Wales Australia
• Outcomes for patients with COVID‐19 admitted to Australian intensive care units during the first four months of the pandemic
• Value of consultation in establishing a public health research network: lessons from APPRISE
• How should we conduct pandemic vaccination?
• Constructing an ethical framework for priority allocation of pandemic vaccines
• How do data bolster pandemic preparedness and response? How do we improve data and systems to be better prepared?
• Education and training in infection prevention and control: Exploring support for national standards
• Where has all the influenza gone? The impact of COVID-19 on the circulation of influenza and other respiratory viruses, Australia, March to September 2020
• Priority allocation of pandemic influenza vaccines in Australia – Recommendations of 3 community juries
• Maintaining strong foundations and building resilience: planning Australia’s path through the COVID-19 pandemic
• COVID-19 public health measures and respiratory syncytial virus
• SARS-CoV-2 genomic and subgenomic RNAs in diagnostic samples are not an indicator of active replication
• Estimating temporal variation in transmission of COVID-19 and adherence to social distancing measures in Australia
• Coronavirus disease model to inform transmission reducing measures and health system preparedness, Australia
• Early analysis of the Australian COVID-19 epidemic
• Changes in public preferences for technologically enhanced surveillance following the COVID-19 pandemic: a discrete choice experiment
• Seroprevalence of SARS-CoV-2-specific antibodies in Sydney, Australia following the first epidemic wave in 2020
• A model of population dynamics with complex household structure and mobility: implications for transmission and control of communicable diseases
• Ending COVID-19: progress and gaps in research—highlights of the July 2020 GloPID-R COVID-19 Research Synergies Meetings
• Leveraging the advances in HIV for COVID-19
• COVID‐19 in a Sydney nursing home: a case study and lessons learnt
• Hospital Infection Prevention and Control (IPC) and Antimicrobial Stewardship (AMS): Dual strategies to reduce antibiotic resistance (ABR) in hospitals
• Effect of hydrocortisone on mortality and organ support in patients with severe COVID-19. The REMAP-CAP COVID-19 corticosteroid domain randomized clinical trial
• Medical interns’ reflections on their training in use of personal protective equipment
• Geospatial epidemiology of Staphylococcus aureus in a tropical setting: an enabling digital surveillance platform
• Attributable length of stay, mortality risk and costs of bacterial healthcare-associated infections in Australia: a retrospective case-cohort study
• Championing women working in health across regional and rural Australia – a new dual-mentorship model
• Infection dynamics of swine influenza virus in a Danish pig herd reveals recurrent infections with different variants of the H1N2 swine influenza A virus subtype
• Tracking the COVID-19 pandemic in Australia using genomics
• Building an ethics framework for COVID-19 resource allocation: The How and the Why
• An ethics framework for making resource allocation decisions within clinical care: Responding to COVID-19
• Transmission of SARS-CoV-2 in Australian educational settings: a prospective cohort study
• Metagenomic characterisation of avian parvoviruses and picornaviruses from Australian wild ducks
• Outcomes reported for Australian First Nation populations for the influenza A(H1N1) 2009 pandemic and lessons for future infectious disease emergencies: a systematic review
• RDA COVID-19 Working Group recommendations and guidelines on data sharing
• Prioritising access to pandemic influenza vaccine: a review of the ethics literature
• Webinar: Bioethics and COVID-19
• The challenges of establishing adequate capacity for SARS‐CoV‐2 testing
• Isolation and rapid sharing of the 2019 novel coronavirus (SARS ‐CoV‐2) from the first patient diagnosed with COVID ‐19 in Australia
• First Nations people leading the way in COVID-19 pandemic planning, response and management
• Rapid research report – The most promising therapeutics for COVID-19
• Trajectories of hospital infection control: Using non-representational theory to understand and improve infection prevention and control
• Key ethical concepts and their application to COVID-19 research
• Estimating the case detection rate and temporal variation in transmission of COVID-19 in Australia
• Modelling the impact of COVID-19 in Australia to inform transmission reducing measures and health system preparedness [pre-print]
• Early analysis of the Australian COVID-19 epidemic [preprint]
• Assessing the risk of spread of COVID-19 to the Asia Pacific region [preprint]
• SARS, MERS and COVID-19—new threats; old lessons
• Living with COVID-19: Planning policy for the next stage
• Infectious disease pandemic planning and response: Incorporating decision analysis
• An ethics framework for making resource allocation decisions within clinical care: Responding to COVID-19
• Breadth of concomitant immune responses prior to patient recovery: a case report of non-severe COVID-19
• Breadth of concomitant immune responses underpinning viral clearance and patient recovery in a non-severe case of COVID-19
• Hospital infection control: old problem – evolving challenges
• One Health and zoonotic uncertainty in Singapore and Australia: Examining different regimes of precaution in outbreak decision-making
• Detection of a reassortant H9N2 Avian Influenza virus with intercontinental gene segments in a resident Australian Chestnut Teal
• Defining, controlling and analysing Indigenous data: commitment to historical consistency or commitment to Australian Aboriginal and Torres Strait Islander peoples?
• Enablers of, and barriers to, optimal glove and mask use for routine care in the emergency department: an ethnographic study of Australian clinicians
• Causes and clinical features of childhood encephalitis: A multicenter, prospective cohort study
• Why research ethics should add retrospective review
• An emerging human parechovirus type 5 causing sepsis-like illness in infants in Australia
• Influenza vaccination coverage in a population-based cohort of Australian-born Aboriginal and non-Indigenous older adults
• Presenteeism among health care workers with laboratory-confirmed influenza infection: A retrospective cohort study in Queensland, Australia
• Parechovirus A infections in healthy Australian children during the first 2-years of life: a community-based longitudinal birth cohort study
• Vaccine preventable diseases and vaccination coverage in Aboriginal and Torres Strait Islander People, Australia, 2011–2015
• Ethics of public health surveillance: new guidelines
• Respiratory illness in a piggery associated with the first identified outbreak of swine influenza in Australia: Assessing the risk to human health and zoonotic potential
• Advancing Planetary Health in Australia: focus on emerging infections and antimicrobial resistance
• High burden of infectious disease and antibiotic use in early life in Australian Aboriginal communities
• Towards effective outbreak detection: a qualitative study to identify factors affecting nurses’ early warning surveillance practice in Solomon Islands
• Priority needs for conducting pandemic-relevant clinical research with children in Europe: A consensus study with pediatric clinician-researchers
• Evolutionary analysis of human parechovirus type 3 and clinical outcomes of infection during the 2017-18 Australian epidemic
• Influenza and pertussis vaccination of women during pregnancy in Victoria, 2015–2017
• Communicable disease surveillance ethics in the age of big data and new technology
• Optimal timing of influenza vaccine during pregnancy: A systematic review and meta‐analysis
• Letter to the Editor in response to the article by Borg et al
• Perspectives of Australian policy-makers on the potential benefits and risks of technologically enhanced communicable disease surveillance – a modified Delphi survey
• Public preferences for One Health approaches to emerging infectious diseases: A discrete choice experiment
• Detection and characterisation of canine astrovirus, canine parvovirus and canine papillomavirus in puppies using next generation sequencing
• Clinician perceptions of respiratory infection risk; a rationale for research into mask use in routine practice
• Influenza epidemiology, vaccine coverage and vaccine effectiveness in children admitted to sentinel Australian hospitals in 2017: Results from the PAEDS-FluCAN Collaboration
• Improving emergency preparedness and response in the Asia–Pacific
• The impact of influenza infection on young children, their family and the health care system
• Role of viral and bacterial pathogens in causing pneumonia among Western Australian children: a case-control study protocol
• Divergent human origin influenza viruses detected in Australian swine populations
• Recruiting general practice patients for large clinical trials: lessons from the Aspirin in Reducing Events in the Elderly (ASPREE) study
• Book: Video-reflexive ethnography in health research and healthcare improvement
• Managing the risk of Hendra virus spillover in Australia using ecological approaches: A report on three community juries
• Clinical research networks and assessing pandemic severity
• Presentation: A mixed methods study of the risk-taking behaviour of clinical staff towards routine use of protective masks for infectious diseases
• Presentation: Talking with patients: Improving clinician-patient communication around healthcare-associated infections using video-reflexive methods
• Presentation: Keeping our hospitals safe from exotic infections
• Planning for and responding to pandemic influenza emergencies: it’s time to listen to, prioritize and privilege Aboriginal perspectives
• Characterising seasonal influenza epidemiology using primary care surveillance data
• Presentation: APPRISE – Case study of a Centre of Research Excellence with consultation requirement
• To follow a rule? On frontline clinicians’ understandings and embodiments of hospital-acquired infection prevention and control rules
• Metagenomics detection and characterisation of viruses in faecal samples from Australian wild birds
• Parechovirus: an important emerging infection in young infants
• Bending the pandemic curve: Improving decision-making with clinical research
• Plenary presentation: Pandemics cross borders: How to tackle them from a global perspective
• Webinar – Managing uncertainty in clinical trials: the role of adaptive trial designs
• Presentation – Opportunities for the Australian Partnership for Preparedness Research on Infectious Disease Emergencies (APPRISE) Centre for Research Excellence
• Is Australia prepared for the next pandemic?
• Developing research priorities for Australia’s response to infectious disease emergencies